Data Package Metadata View Summary

Data from Globally Consistent Drivers of Plant Microbiome Diversity Across Hosts and Continents

General Information

Data Package:

Local Identifier:

edi.1418.2

Title:

Data from Globally Consistent Drivers of Plant Microbiome Diversity Across Hosts and Continents

Alternate Identifier:

DOI PLACE HOLDER

Abstract:

We experimentally manipulated two potential mediators of plant microbiome diversity (soil nutrient supply and herbivore density) at 23 grassland sites spanning global-scale gradients in soil nutrients, climate, and plant biomass. This work used sites that are part of the Nutrient Network Experiment (NutNet; www.nutnet.org), a globally replicated experiment manipulating elemental nutrient supplies and herbivore density in grasslands worldwide. Using amplicon sequencing, we measured relative abundances of fungal (ITS1) and prokaryotic (16S) diversity in the leaves of the most widespread grass at each of 23 grassland sites (focal hosts included 18 grass species from 15 genera).

Publication Date:

2023-05-15

For more information:
Visit:	DOI PLACE HOLDER

Time Period

Begin:

2015

End:

2016

People and Organizations
Contact:	Seabloom, Eric W (University of Minnesota) [ email ]
Creator:	Seabloom, Eric W (University of Minnesota, Professor)
Creator:	Caldeira, Maria C (University of Lisbon)
Creator:	Davies, Kendi F (University of Colorado)
Creator:	Kinkel, Linda (University of Minnesota)
Creator:	Knops, Johannes M. H. (Xi'an Jiaotong Liverpool University)
Creator:	Komatsu, Kimberly J (Smithsonian Environmental Research Center)
Creator:	MacDougall, Andrew S (University of Guelph)
Creator:	May, Georgiana (University of Minnesota)
Creator:	Millican, Michael (University of Minnesota)
Creator:	Moore, Joslin L (Arthur Rylah Institute for Environmental Research, Monash University, University of Melbourne)
Creator:	Perez, Luis I (IFEVA-Facultad de Agronomía (UBA)/CONICET)
Creator:	Porath-Krause, Anita J (University of Minnesota)
Creator:	Power, Sally A (Hawkesbury Institute for the Environment)
Creator:	Prober, Suzanne M (CSIRO Land & Water)
Creator:	Risch, Anita C (Swiss Federal Institute for Forest, Snow and Landscape Research)
Creator:	Stevens, Carly (Lancaster University)
Creator:	Borer, Elizabeth T (University of Minnesota)

Data Entities
Data Table Name:	nutnet-global-endo-diversity
Description:	PlantEndophyteDiversityAcrossNutrientNetwork

Detailed Metadata

Data Entities

Data Table


Data:	https://pasta-s.lternet.edu/package/data/eml/edi/1418/2/51490f2b5b22cc6acf75b6f832e05d04
Name:	nutnet-global-endo-diversity
Description:	PlantEndophyteDiversityAcrossNutrientNetwork
Number of Records:	732
Number of Columns:	33

Table Structure

Object Name:

nutnet-global-endo-diversity.csv

Size:

231124 byte

Authentication:

1db1201db62a6b5129a7d8731d6c824a Calculated By MD5

Text Format:

Number of Header Lines:

Record Delimiter:

\r\n

Orientation:

column

Simple Delimited:

Field Delimiter:	,
Quote Character:	"

Table Column Descriptions

site_code

year

block

plot

sample.id

taxa

site_name

continent

country

region

elevation

latitude

longitude

map_v2

mat_v2

pet

pct_c

pct_n

ppm_p

trt

fert

exclose

year_trt

host_cover

site_year_rich

live_mass

shade

div.plant

s.plant

div.its

div.16s

div.16s.site

div.its.site

Column Name:

site_code

year

block

plot

sample.id

taxa

site_name

continent

country

region

elevation

latitude

longitude

map_v2

mat_v2

pet

pct_c

pct_n

ppm_p

trt

fert

exclose

year_trt

host_cover

site_year_rich

live_mass

shade

div.plant

s.plant

div.its

div.16s

div.16s.site

div.its.site

Definition:

code in the form of "shorthand.country" e.g., cdcr.us, kiny.au, frue.ch

calendar year that biomass, cover and PAR (light) data were taken. Soil data in this dataset are from the pre-treatment year, unique to each site.

block number

plot number

unique identifier for a plant tissue sample used for sequencing

plant host species from which tissue sample was collected

Expanded site name

site continent

site country

site region

mean elevation (m)

latitude from -90 (S) to +90 (N) in decimal degrees

longitude from -180 (W) to 180 (E) in decimal degrees

Mean Annual Precipitation (WorldClim)

Annual Mean Temperature (BIOCLIM)

Potential Evapo-transpiration (mm yr-1) (CGIAR)

pre-treatment soil percent Carbon by mass

pre-treatment soil percent Nitrogen by mass

pre-treatment soil phosphorus by mass (ppm)

applied treatment combination

1=fertilized, 0=control

1=fenced, 0=control

0 = pretreatment observation; 1=first observations after treatments; 2=2nd year after treatment; etc

percent cover of host plant

COUNT of unique taxa observed across all plots at the site in that year

SUM of live vascular plant biomass per plot (g/m2)

1 - proportion PAR light at ground level

plant diversity - ENS_PIE

plant richness

leaf level fungal diversity - ENS_PIE

leaf level prokaryotic diversity - ENS_PIE

host population level fungal diversity - ENS_PIE

host population level prokaryotic diversity - ENS_PIE

Storage Type:

string

dateTime

string

float

string

float

string

float

Measurement Type:

nominal

dateTime

nominal

ratio

nominal

ratio

nominal

ratio

Measurement Values Domain:

Definition

text

Format	YYYY
Precision

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	1
Definition	block number
Source

Code Definition

Code	2
Definition	block number
Source

Code Definition

Code	3
Definition	block number
Source

Code Definition

Code	4
Definition	block number
Source

Code Definition

Code	5
Definition	block number
Source

Unit	number
Type	integer

Definition

text

Definition

text

Definition

text

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	Australia
Definition	site continent
Source

Code Definition

Code	Europe
Definition	site continent
Source

Code Definition

Code	North America
Definition	site continent
Source

Code Definition

Code	South America
Definition	site continent
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	AR
Definition	site country
Source

Code Definition

Code	AU
Definition	site country
Source

Code Definition

Code	CA
Definition	site country
Source

Code Definition

Code	CH
Definition	site country
Source

Code Definition

Code	PT
Definition	site country
Source

Code Definition

Code	UK
Definition	site country
Source

Code Definition

Code	US
Definition	site country
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	Australia
Definition	site region
Source

Code Definition

Code	Central plains (North America)
Definition	site region
Source

Code Definition

Code	Europe
Definition	site region
Source

Code Definition

Code	Montane West (North America)
Definition	site region
Source

Code Definition

Code	Pacific Coast (North America)
Definition	site region
Source

Code Definition

Code	South America
Definition	site region
Source

Unit	meter
Type	real

Unit	degree
Type	real

Unit	degree
Type	real

Unit	millimeter
Type	integer

Unit	celsius
Type	real

Unit	millimeter
Type	integer

Unit	percent
Type	real

Unit	percent
Type	real

Unit	parts per million
Type	real

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	Control
Definition	Control treatment - no fertilizer or fence applied
Source

Code Definition

Code	Fence
Definition	Fence applied
Source

Code Definition

Code	NPK
Definition	Nitrogen, Phosphorus, and Potassium applied
Source

Code Definition

Code	NPK+Fence
Definition	Nitrogen, Phosphorus, Potassium, and Fence applied
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	0
Definition	No fertilizer applied
Source

Code Definition

Code	1
Definition	Fertilizer applied
Source

Allowed Values and Definitions

Enumerated Domain

Code Definition

Code	0
Definition	No fence applied
Source

Code Definition

Code	1
Definition	Fence applied
Source

Unit	number
Type	integer

Unit	percent
Type	real

Unit	number
Type	integer

Unit	gramPerMeterSquared
Type	real

Unit	number
Type	real

Unit	number
Type	real

Unit	number
Type	integer

Unit	number
Type	real

Unit	number
Type	real

Unit	number
Type	real

Unit	number
Type	real

Missing Value Code:

Code	NA
Expl	Not available

Code	NA
Expl	Not available

Code	NA
Expl	Not available

Code	NA
Expl	Not available

Code	NA
Expl	Not available

Code	NA
Expl	Not available

Accuracy Report:

Accuracy Assessment:

Coverage:

Methods:

Data Package Usage Rights

This data package is released to the "public domain" under Creative Commons CC0 1.0 "No Rights Reserved" (see: https://creativecommons.org/publicdomain/zero/1.0/). It is considered professional etiquette to provide attribution of the original work if this data package is shared in whole or by individual components. A generic citation is provided for this data package on the website https://portal.edirepository.org (herein "website") in the summary metadata page. Communication (and collaboration) with the creators of this data package is recommended to prevent duplicate research or publication. This data package (and its components) is made available "as is" and with no warranty of accuracy or fitness for use. The creators of this data package and the website shall not be liable for any damages resulting from misinterpretation or misuse of the data package or its components. Periodic updates of this data package may be available from the website. Thank you.

Keywords

By Thesaurus:
(No thesaurus)	Microbiome, Nutrients, Herbivore, Grassland, Plant biomass, Shade, Light availability, Nutrient Network

Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

Methods and protocols used in the collection of this data package

Description:

At each of the 23 Nutrient Network sites, we collected leaves from the most abundant grass species in control plots, fertilized plots (increased nutrient supply), fenced plots (reduced herbivory), and fenced and fertilized plots. This sampling included data from 18 different grass species spanning 15 genera (Table S1). We surface sterilized each leaf, then determined the diversity of microbes within the leaf using amplicon sequencing for the 16S rRNA and ITS-1 regions using 2 x 250 paired ends on an Illumina MiSeq platform.

Instrument(s):

Illumina MiSeq

People and Organizations

Publishers:

Organization:

Environmental Data Initiative

Email Address:

info@edirepository.org

Web Address:

https://edirepository.org

Id:

https://ror.org/0330j0z60

Creators:

Individual:

Eric W Seabloom

Organization:

University of Minnesota

Position:

Professor

Address:

1479 Gortner Ave,

140 Gortner Lab,

Saint Paul, Minnesota 55108 United States

Email Address:

seabloom@umn.edu

Id:

https://orcid.org/0000-0001-6780-9259

Individual:

Maria C Caldeira

Organization:

University of Lisbon

Address:

Portugal

Email Address:

mcaldeira@isa.ulisboa.pt

Id:

https://orcid.org/0000-0002-3586-8526

Individual:

Kendi F Davies

Organization:

University of Colorado

Address:

Boulder, CO United States

Email Address:

kendi.davies@colorado.edu

Id:

https://orcid.org/0000-0001-7716-3359

Individual:

Linda Kinkel

Organization:

University of Minnesota

Address:

St.Paul, Minnesota United States

Email Address:

kinkel@umn.edu

Id:

https://orcid.org/0000-0002-5331-5589

Individual:

Johannes M. H. Knops

Organization:

Xi'an Jiaotong Liverpool University

Address:

China

Email Address:

Johannes.knops@xjtlu.edu.cn

Id:

https://orcid.org/0000-0002-9647-9209

Individual:

Kimberly J Komatsu

Organization:

Smithsonian Environmental Research Center

Address:

MD United States

Email Address:

komatsuk@si.edu

Id:

https://orcid.org/0000-0001-7056-4547

Individual:

Andrew S MacDougall

Organization:

University of Guelph

Address:

Canada

Email Address:

asm@uoguelph.ca

Individual:

Georgiana May

Organization:

University of Minnesota

Address:

United States

Email Address:

gmay@umn.edu

Id:

https://orcid.org/0000-0002-4507-9408

Individual:

Michael Millican

Organization:

University of Minnesota

Address:

United States

Email Address:

mmillica@umn.edu

Individual:

Joslin L Moore

Organization:

Arthur Rylah Institute for Environmental Research, Monash University, University of Melbourne

Address:

Australia

Email Address:

joslin.moore@monash.edu

Individual:

Luis I Perez

Organization:

IFEVA-Facultad de Agronomía (UBA)/CONICET

Address:

Argentina

Email Address:

liperez@agro.uba.ar

Individual:

Anita J Porath-Krause

Organization:

University of Minnesota

Address:

MN United States

Email Address:

aporathk@umn.edu

Id:

https://orcid.org/0000-0002-9119-2372

Individual:

Sally A Power

Organization:

Hawkesbury Institute for the Environment

Address:

Australia

Email Address:

s.power@westernsydney.edu.au

Id:

https://orcid.org/0000-0002-2723-8671

Individual:

Suzanne M Prober

Organization:

CSIRO Land & Water

Address:

Australia

Email Address:

Suzanne.Prober@csiro.au

Id:

https://orcid.org/0000-0002-6518-239X

Individual:

Anita C Risch

Organization:

Swiss Federal Institute for Forest, Snow and Landscape Research

Address:

Switzerland

Email Address:

anita.risch@wsl.ch

Id:

https://orcid.org/0000-0003-0531-8336

Individual:

Carly Stevens

Organization:

Lancaster University

Address:

Email Address:

c.stevens@lancaster.ac.uk

Id:

https://orcid.org/0000-0002-2390-1763

Individual:

Elizabeth T Borer

Organization:

University of Minnesota

Address:

Minnesota United States

Email Address:

borer@umn.edu

Id:

https://orcid.org/0000-0003-2259-5853

Contacts:

Individual:

Eric W Seabloom

Organization:

University of Minnesota

Address:

1479 Gortner Ave,

140 Gortner Lab,

Saint Paul, Minnesota 55108 United States

Email Address:

seabloom@umn.edu

Id:

https://orcid.org/0000-0001-6780-9259

Metadata Providers:

Individual:

Eric W Seabloom

Organization:

University of Minnesota

Address:

1479 Gortner Ave,

140 Gortner Lab,

Saint Paul, Minnesota 55108 United States

Email Address:

seabloom@umn.edu

Id:

https://orcid.org/0000-0001-6780-9259

Temporal, Geographic and Taxonomic Coverage

Temporal, Geographic and/or Taxonomic information that applies to all data in this dataset:

Time Period

Begin:

2015

End:

2016

Sampling Site:

Description:

CentralplainsNorthAmerica

Site Coordinates:

Longitude (degree):

-105.233544

Latitude (degree):

39.972022

Sampling Site:

Description:

Montane WestNorthAmerica

Site Coordinates:

Longitude (degree):

-121.9680169

Latitude (degree):

44.27668543

Sampling Site:

Description:

Australia

Site Coordinates:

Longitude (degree):

147.254

Latitude (degree):

-36.874

Sampling Site:

Description:

Australia

Site Coordinates:

Longitude (degree):

151.139517

Latitude (degree):

-27.734896

Sampling Site:

Description:

Central plainsNorthAmerica

Site Coordinates:

Longitude (degree):

-93.38538333

Latitude (degree):

41.78506667

Sampling Site:

Description:

Central plainsNorthAmerica

Site Coordinates:

Longitude (degree):

-93.2115

Latitude (degree):

45.425

Sampling Site:

Description:

Central plainsNorthAmerica

Site Coordinates:

Longitude (degree):

-101.63

Latitude (degree):

41.2

Sampling Site:

Description:

South America

Site Coordinates:

Longitude (degree):

-58.265556

Latitude (degree):

-36.275556

Sampling Site:

Description:

Europe

Site Coordinates:

Longitude (degree):

-8.791406

Latitude (degree):

38.82928

Sampling Site:

Description:

Pacific CoastNorthAmerica

Site Coordinates:

Longitude (degree):

-123.6301

Latitude (degree):

48.8088

Sampling Site:

Description:

Pacific CoastNorthAmerica

Site Coordinates:

Longitude (degree):

-123.0603134

Latitude (degree):

39.01275343

Sampling Site:

Description:

Central plainsNorthAmerica

Site Coordinates:

Longitude (degree):

-79.535881

Latitude (degree):

44.024047

Sampling Site:

Description:

Central plainsNorthAmerica

Site Coordinates:

Longitude (degree):

-96.582821

Latitude (degree):

39.070856

Sampling Site:

Description:

Europe

Site Coordinates:

Longitude (degree):

-2.628417566

Latitude (degree):

53.98562471

Sampling Site:

Description:

Montane WestNorthAmerica

Site Coordinates:

Longitude (degree):

-122.1284473

Latitude (degree):

44.20517707

Sampling Site:

Description:

Australia

Site Coordinates:

Longitude (degree):

117.610853

Latitude (degree):

-31.782138

Sampling Site:

Description:

Central plainsNorthAmerica

Site Coordinates:

Longitude (degree):

-99.1

Latitude (degree):

39.05

Sampling Site:

Description:

Central plainsNorthAmerica

Site Coordinates:

Longitude (degree):

-106.6905

Latitude (degree):

34.3592

Sampling Site:

Description:

Montane WestNorthAmerica

Site Coordinates:

Longitude (degree):

-112.198391

Latitude (degree):

44.242989

Sampling Site:

Description:

Pacific CoastNorthAmerica

Site Coordinates:

Longitude (degree):

-121.2836963

Latitude (degree):

39.23550963

Sampling Site:

Description:

Central plainsNorthAmerica

Site Coordinates:

Longitude (degree):

-84.500556

Latitude (degree):

38.135833

Sampling Site:

Description:

Europe

Site Coordinates:

Longitude (degree):

10.372252

Latitude (degree):

46.631345

Sampling Site:

Description:

Australia

Site Coordinates:

Longitude (degree):

150.73

Latitude (degree):

-33.61

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Poa hiemata

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Eragrostis curvula

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Austrostipa nitida

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Setaria parviflora

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Festuca rubra

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Avena barbata

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Holcus lanatus

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Aleopecurus pratensis

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Bromus inermis

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Sporabolus aroides

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Bromus carinatus

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Schizachyrium scoparium

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Andropogon gerardii

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Stipa comata

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Bromus hordeaceus

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Bouteloua eriopoda

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Pseudoroegneria spicata

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Poa pratensis

Taxonomic Range:

Classification:

Rank Name:	Species
Rank Value:	Schenodorus phoenix

Project

Parent Project Information:

Title:

Endophyte community and climate data - global NutNet sites

Personnel:

Individual:

Eric W Seabloom

Organization:

University of Minnesota

Address:

1479 Gortner Ave,

140 Gortner Lab,

Saint Paul, Minnesota 55108 United States

Email Address:

seabloom@umn.edu

Id:

https://orcid.org/0000-0001-6780-9259

Role:

Project central point of contact

Maintenance

Maintenance:

Description:	Samples were collected in 2015 and 2016. This data set has no expected changes.
Frequency:	notPlanned

Other Metadata

Additional Metadata

additionalMetadata
        |___text '\n    '
        |___element 'metadata'
        |     |___text '\n      '
        |     |___element 'unitList'
        |     |     |___text '\n        '
        |     |     |___element 'unit'
        |     |     |     |  \___attribute 'id' = 'parts per million'
        |     |     |     |  \___attribute 'name' = 'parts per million'
        |     |     |     |___text '\n          '
        |     |     |     |___element 'description'
        |     |     |     |___text '\n        '
        |     |     |___text '\n      '
        |     |___text '\n    '
        |___text '\n  '

Additional Metadata

additionalMetadata
        |___text '\n    '
        |___element 'metadata'
        |     |___text '\n      '
        |     |___element 'emlEditor'
        |     |        \___attribute 'app' = 'ezEML'
        |     |        \___attribute 'release' = '2023.05.11'
        |     |___text '\n    '
        |___text '\n  '

Copyright 2024 Environmental Data Initiative. This material is based upon work supported by the National Science Foundation under grants #2223103 and #2223104. Any opinions, findings, conclusions, or recommendations expressed in the material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation. Please contact us with questions, comments, or for technical assistance regarding this web site or the Environmental Data Initiative. Please read our privacy policy to know what information we collect about you and to understand your privacy rights.

EDI is a collaboration between the University of New Mexico and the University of Wisconsin – Madison, Center for Limnology:

Data Package Metadata View Summary

Data from Globally Consistent Drivers of Plant Microbiome Diversity Across Hosts and Continents

Data Entities

Data Table

Data Package Usage Rights

Keywords

Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

People and Organizations

Temporal, Geographic and Taxonomic Coverage

Project

Parent Project Information:

Maintenance

Additional Metadata

Additional Metadata

Recently Added

Recently Updated

Data Package Metadata View Summary

Data from Globally Consistent Drivers of Plant Microbiome Diversity Across Hosts and Continents

+/- Data Entities

Data Table

+/- Data Package Usage Rights

+/- Keywords

+/- Methods and Protocols

These methods, instrumentation and/or protocols apply to all data in this dataset:

+/- People and Organizations

+/- Temporal, Geographic and Taxonomic Coverage

+/- Project

Parent Project Information:

+/- Maintenance

+/- Additional Metadata

+/- Additional Metadata

Data Entities

Data Package Usage Rights

Keywords

Methods and Protocols

People and Organizations

Temporal, Geographic and Taxonomic Coverage

Project

Maintenance

Additional Metadata

Additional Metadata